RADcap target enrichment of  cv_nigripectus_SDNHM_54282
We used 50 ng of DNA in 5 uL volume to prepare dual-indexed genomic libraries of each sample using 3RAD (Graham et al. 2015; Bayona-Vsquez et al. 2019a), a modified version of RADseq (Baird et al. 2008), using custom indexes (Glenn et al., 2019). Uniquely indexed samples were then pooled in groups of eight, and each pool was indexed with a unique iTru7 index and a random octamer iTru5-8N index to allow for the identification and removal of PCR duplicates in downstream analyses. We enriched each library pool for a set of 2,351 genus-specific RAD loci (Salter et al. 2023) using a MYbaits Custom Kit from Daicel Arbor Biosciences following a RADcap protocol adapted from Hoffberg et al. (2016). After enrichment, we performed 12-16 cycles of PCR recovery, removed adapter-dimers using a Qiagen GeneRead Size Selection Kit, and collected paired-end 150 bp sequence data two lanes on an Illumina NovaSeq 6000.